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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/autodef__mod__combo_8hpp_source.html below:

NCBI C++ ToolKit: include/objmgr/util/autodef_mod_combo.hpp Source File

1 #ifndef OBJMGR_UTIL___AUTODEF_MOD_COMBO__HPP 2 #define OBJMGR_UTIL___AUTODEF_MOD_COMBO__HPP 70  unsigned int

GetNumGroups();

72  unsigned int

GetNumSubSources();

74  unsigned int

GetNumOrgMods();

86  bool

GetDefaultExcludeSp();

88  void

SetUseModifierLabels(

bool

use);

89  bool

GetUseModifierLabels();

90  void

SetMaxModifiers(

int

max_mods);

91  int

GetMaxModifiers();

92  void

SetAllowModAtEndOfTaxname(

bool

keep);

93  bool

GetAllowModAtEndOfTaxname();

94  void

SetKeepCountryText(

bool

keep);

95  bool

GetKeepCountryText();

96  void

SetExcludeSpOrgs(

bool

exclude);

97  bool

GetExcludeSpOrgs ();

98  void

SetExcludeCfOrgs(

bool

exclude);

99  bool

GetExcludeCfOrgs ();

100  void

SetExcludeNrOrgs(

bool

exclude);

101  bool

GetExcludeNrOrgs ();

102  void

SetExcludeAffOrgs(

bool

exclude);

103  bool

GetExcludeAffOrgs ();

104  void

SetKeepParen(

bool

keep);

106  void

SetKeepAfterSemicolon(

bool

keep);

107  bool

GetKeepAfterSemicolon();

111  string

GetSourceDescriptionString(

const CBioSource

& bsrc);

122  unsigned int

GetNumUnique ()

const

;

123  unsigned int

GetMaxInGroup ()

const

;

136  bool

AddQual (

bool

IsOrgMod,

int

subtype,

bool

even_if_not_uniquifying =

false

);

137  bool

RemoveQual (

bool

IsOrgMod,

int

subtype);

139

vector<CRef<CAutoDefModifierCombo>> ExpandByAnyPresent();

140  bool

AreFeatureClausesUnique();

142  static bool

IsModifierRequiredByDefault(

bool

is_orgmod,

int

subtype);

143  static bool

IsModifierInString(

const string

& find_this,

const string

& find_in,

bool

ignore_at_end);

153  static

EInfluenzaType GetInfluenzaType(

const string

& taxname);

178  void

x_CleanUpTaxName (

string

&tax_name);

182  static bool

x_AddMinicircle(

string

& source_description,

const CBioSource

& bsrc);

183  static bool

x_AddMinicircle(

string

& source_description,

const string

& note_text);

198  static bool

x_HasTypeStrainComment(

const CBioSource

& bsrc);

vector< CSubSource::ESubtype > TSubSourceTypeVector

bool operator>(const CAutoDefModifierCombo &src) const

bool GetKeepAfterSemicolon()

TGroupListVector m_GroupList

bool operator<(const CAutoDefModifierCombo &src) const

vector< CRef< CAutoDefSourceGroup > > TGroupListVector

void SetExcludeCfOrgs(bool exclude)

void SetHIVCloneIsolateRule(CAutoDefOptions::EHIVCloneIsolateRule rule_num)

void SetKeepAfterSemicolon(bool keep)

bool GetUseModifierLabels()

void SetExcludeNrOrgs(bool exclude)

bool m_KeepAfterSemicolon

bool GetAllowModAtEndOfTaxname()

bool GetKeepCountryText()

TOrgModTypeVector m_OrgMods

map< CSubSource::ESubtype, bool > TExtraSubSrcs

void SetMaxModifiers(int max_mods)

void SetUseModifierLabels(bool use)

TSubSourceTypeVector m_SubSources

const TGroupListVector & GetGroupList() const

CAutoDefSourceDescription::TModifierVector m_Modifiers

void SetOptions(const CAutoDefOptions &options)

vector< COrgMod::ESubtype > TOrgModTypeVector

bool m_AllowModAtEndOfTaxname

void SetExcludeSpOrgs(bool exclude)

pair< CSubSource::ESubtype, bool > TExtraSubSrc

void SetExcludeAffOrgs(bool exclude)

map< COrgMod::ESubtype, bool > TExtraOrgMods

CAutoDefOptions::EHIVCloneIsolateRule GetHIVCloneIsolateRule()

CAutoDefOptions::EHIVCloneIsolateRule m_HIVCloneIsolateRule

const CAutoDefSourceDescription::TModifierVector & GetModifiers() const

pair< COrgMod::ESubtype, bool > TExtraOrgMod

void SetAllowModAtEndOfTaxname(bool keep)

void SetKeepParen(bool keep)

void SetKeepCountryText(bool keep)

vector< CAutoDefSourceModifierInfo > TModifierVector

vector< CAutoDefAvailableModifier > TAvailableModifierVector

Include a standard set of the NCBI C++ Toolkit most basic headers.

static void AddOrgMod(COrg_ref &org_ref, const Char *val, COrgMod::ESubtype type)

sequence::ECompare Compare(const CSeq_loc &loc1, const CSeq_loc &loc2, CScope *scope)

Returns the sequence::ECompare containment relationship between CSeq_locs.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define END_SCOPE(ns)

End the previously defined scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define BEGIN_SCOPE(ns)

Define a new scope.

#define NCBI_XOBJEDIT_EXPORT

where boath are integers</td > n< td ></td > n</tr > n< tr > n< td > tse</td > n< td > optional</td > n< td > String</td > n< td class=\"description\"> TSE option controls what blob is orig

static SLJIT_INLINE sljit_ins st(sljit_gpr r, sljit_s32 d, sljit_gpr x, sljit_gpr b)

static CRef< CSeqdesc > AddSource(CRef< CSeq_entry > entry, string taxname)

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